plone

R-Rsolid-0.9.31-38.fc36.x86_64
Rsolid is an R package for normalizing fluorescent intensity data from ABI/SOLiD second generation sequencing platform. It has been observed that the color-calls provided by factory software contain technical artifacts, where the proportions of colors called are extremely variable across sequencing cycles. Under the random DNA fragmentation assumption, these proportions should be equal across sequencing cycles and proportional to the dinucleotide frequencies of the sample. Rsolid implements a version of the quantile normalization algorithm that transforms the intensity values before calling colors. Results show that after normalization, the total number of mappable reads increases by around 5%, and number of perfectly mapped reads increases by 10%. Moreover a 2-5% reduction in overall error rates is observed, with a 2-6% reduction in the rate of valid adjacent color mis-matches. The latter is important, since it leads to a decrease in false-positive SNP calls. The normalization algorithm is computationally efficient. In a test we are able to process 300 million reads in 2 hours using 10 computer cluster nodes. The engine functions of the package are written in C for better performance.
Located in LBN / … / Big Data / BastionLinux 36
R-RSQLite-0.11.4-5.lbn19.x86_64
A SQLite database interface definition for communication between R and SQLite databases.
Located in LBN / … / Big Data / BastionLinux 19
R-RSQLite-1.1.2-4.lbn25.x86_64
A SQLite database interface definition for communication between R and SQLite databases.
Located in LBN / … / Big Data / BastionLinux 25
R-RSQLite-2.2.7-3.fc36.x86_64
A SQLite database interface definition for communication between R and SQLite databases.
Located in LBN / … / Big Data / BastionLinux 36
R-rstudioapi-0.7-1.lbn25.noarch
Access the RStudio API (if available) and provide informative error messages when it's not.
Located in LBN / … / Big Data / BastionLinux 25
R-rstudioapi-0.13-6.fc36.noarch
Access the RStudio API (if available) and provide informative error messages when it's not.
Located in LBN / … / Big Data / BastionLinux 36
R-rtracklayer-1.32.2-1.lbn19.x86_64
Extensible framework for interacting with multiple genome browsers (currently UCSC built-in) and manipulating annotation tracks in various formats (currently GFF, BED, bedGraph, BED15, WIG, and BigWig built-in). The user may export/import tracks to/from the supported browsers, as well as query and modify the browser state, such as the current viewport.
Located in LBN / … / Big Data / BastionLinux 19
R-rtracklayer-1.36.3-3.lbn25.x86_64
Extensible framework for interacting with multiple genome browsers (currently UCSC built-in) and manipulating annotation tracks in various formats (currently GFF, BED, bedGraph, BED15, WIG, and BigWig built-in). The user may export/import tracks to/from the supported browsers, as well as query and modify the browser state, such as the current viewport.
Located in LBN / … / Big Data / BastionLinux 25
R-rtracklayer-1.52.0-4.fc36.x86_64
Extensible framework for interacting with multiple genome browsers (currently UCSC built-in) and manipulating annotation tracks in various formats (currently GFF, BED, bedGraph, BED15, WIG, and BigWig built-in). The user may export/import tracks to/from the supported browsers, as well as query and modify the browser state, such as the current viewport.
Located in LBN / … / Big Data / BastionLinux 36
R-RUnit-0.4.26-11.lbn19.noarch
R functions implementing a standard Unit Testing framework, with additional code inspection and report generation tools
Located in LBN / … / Big Data / BastionLinux 19

« Previous 10 items Next 10 items » 1 ... 3934 3935 3936 3937 3938 3939 3940 ... 4881

Sections

Search results


	Copyright © 2000-2025 Corporation of Balclutha Inc. All rights reserved.